6HWZ

Selenols: a new class of Carbonic Anhydrase inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.225 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Selenols: a new class of carbonic anhydrase inhibitors.

Angeli, A.Tanini, D.Nocentini, A.Capperucci, A.Ferraroni, M.Gratteri, P.Supuran, C.T.

(2019) Chem. Commun. (Camb.) 55: 648-651

  • DOI: 10.1039/c8cc08562e
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Stable aryl selenols were obtained through a convenient procedure. Selenols represent a new chemotype acting as carbonic anhydrase inhibitors (CAIs), inhibiting four human isoforms, CAs I, II, VII and the tumor-associated CA IX. X-ray crystallographi ...

    Stable aryl selenols were obtained through a convenient procedure. Selenols represent a new chemotype acting as carbonic anhydrase inhibitors (CAIs), inhibiting four human isoforms, CAs I, II, VII and the tumor-associated CA IX. X-ray crystallographic, physical and computational studies provided insights into the binding mode of this conceptually new class of CAIs.


    Organizational Affiliation

    Sprint Bioscience , 141 57 Huddinge , Sweden.,Infectious Diseases Discovery , GlaxoSmithKline , 1250 South Collegeville Road , Collegeville , Pennsylvania 19426 , United States.,College of Life Sciences, State Key Laboratory of Medicinal Chemical Biology, Nankai University, Tianjin, 300071, People's Republic of China. Electronic address: zhouwh@nankai.edu.cn.,Antibody and Vaccine Group, Cancer Sciences Unit, University of Southampton Faculty of Medicine, Southampton SO16 6YD, UK; Institute for Life Sciences, University of Southampton, Southampton SO17 1BJ, UK.,Department of Chemistry and Technologies of Drugs, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy.,Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305.,Gene Center, Ludwig-Maximilians-Universität München, Munich, Germany.,VIB Switch Laboratory, VIB, 3000 Leuven, Belgium.,Cleveland Center for Membrane and Structural Biology, Case Western Reserve University, Cleveland, OH 44106, USA.,Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, University of Tokyo, Kashiwa, Chiba, Japan.,From the Department of Biochemistry and Molecular Biology and Hollings Cancer Center, Medical University of South Carolina, Charleston, South Carolina 29425 olsensk@musc.edu.,Institut de Biologie Structurale, Université Grenoble Alpes-CEA-CNRS, Grenoble, France.,Graduate School of Horticulture, Chiba University, Matsudo, Chiba, Japan.,Institute of Molecular and Cell Biology, A*STAR (Agency for Science, Technology and Research), Singapore.,Pohang Accelerator Laboratory, Pohang, Gyeongbuk, Republic of Korea.,Protein Core Facility, University of Southampton Faculty of Medicine, Southampton SO16 6YD, UK.,European Synchrotron Radiation Facility, 38043 Grenoble, France.,CRUK Beatson Institute, Garscube Campus, Glasgow, Scotland United Kingdom.,VIB-VUB Center for Structural Biology, Pleinlaan 2, 1050 Brussels, Belgium jlauer@mpi-cbg.de wim.versees@vub.be.,Department of Chemistry, Chemistry Research Laboratory, University of Oxford, Mansfield Road, Oxford OX1 3TA, United Kingdom. Electronic address: stuart.conway@chem.ox.ac.uk.,Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA 94305; kcgarcia@stanford.edu.,Institute of Bioscience, Universiti Putra Malaysia, UPM Serdang, Selangor Malaysia.,Scripps Research, United States.,School of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne NE1 7RU, United Kingdom.,Department of Anesthesiology, University of Michigan, Ann Arbor, MI, 48105, USA.,Charnwood Molecular , Loughborough LE11 5DA , U.K.,Department of Chemistry, Chemistry Research Laboratory, University of Oxford, Mansfield Road, Oxford OX1 3TA, United Kingdom.,Neuroscience, IMED Biotech Unit , AstraZeneca , Cambridge CB21 6GH , U.K.,Department of Hematology and Oncology, Center for Cancer Immune Therapy, Herlev Hospital, University of Copenhagen, Herlev, Denmark.,Chemistry Research Laboratory, Department of Chemistry, University of Oxford, Mansfield Road, Oxford, OX1 3TA, U.K.,Beijing Advanced Innovation Center for Food Nutrition and Human Health, State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, 100193, China. chenzhongzhou@cau.edu.cn.,Asubio Pharma Co., Ltd., 6-4-3 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan.,Faculty of Life Sciences, Kyoto Sangyo University, Kyoto, Japan.,Higuchi Biosciences Center, University of Kansas, Lawrence, Kansas, 66047.,Henry Wellcome Building for Molecular Physiology, University of Oxford, Oxford, OX3 7BN, UK.,The Gut Health and Food Safety Programme, Quadram Bioscience Institute, NR4 7UA Norwich, United Kingdom.,Department of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, Bunkyo-ku, Tokyo, Japan. ts@chembio.t.u-tokyo.ac.jp.,Department of Radiation Oncology, Perlmutter Cancer Center , NYU Langone Medical Center , New York , New York 10016 , United States.,Epigenetic Regulation of Chromatin Function Group, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, OX1 3QU, U.K.,Program in Immunology, Stanford University School of Medicine, Stanford, CA 94305.,Department Molecular Oncology and Immunology, B6 Plesmanlaan 121, Amsterdam, 1066CX, The Netherlands.,Department of Pharmacology, School of Medicine, Case Western Reserve University, Cleveland, OH 44106, USA.,Pohang Accelerator Laboratory, Pohang, Gyeongbuk, Republic of Korea. jaehyun.park@postech.ac.kr.,Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, Viale G. Fanin 40, I-40127 Bologna, Italy. stefano.ciurli@unibo.it.,Polgenix Inc., Cleveland, OH 44106, USA.,Genome Damage and Stability Centre, School of Life Sciences, University of Sussex, Falmer, United Kingdom.,The Gut Health and Food Safety Programme, Quadram Bioscience Institute, NR4 7UA Norwich, United Kingdom; c.dong@uea.ac.uk nathalie.juge@quadram.ac.uk.,Cancer Immunology Discovery, Pfizer Inc., 230 E. Grand Ave, South San Francisco, CA, 94080, USA.,Departments of Biophysics, UT Southwestern Medical Center, 5323 Harry Hines Blvd., Dallas, Texas, 75390.,BioMedical Research Centre, University of East Anglia, NR4 7TJ Norwich, United Kingdom; c.dong@uea.ac.uk nathalie.juge@quadram.ac.uk.,Moscow Institute of Physics and Technology, Dolgoprudniy, Russia.,Institute for Life Sciences, University of Southampton, Southampton SO17 1BJ, UK; Biological Sciences, University of Southampton, Southampton SO17 1BJ, UK.,Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37232-0146 , United States.,College of Life Sciences, College of Pharmacy, State Key Laboratory of Medicinal Chemical Biology, Nankai University, Tianjin, 300071, People's Republic of China.,Institute of Biochemistry and Molecular Biology, National Yang-Ming University, Taipei, 112, Taiwan.,Meyer Cancer Center, Department of Medicine , Weill Cornell Medical College , New York , New York 10065 , United States.,Nuffield Department of Medicine Research Building, Roosevelt Drive, Nuffield Department of Medicine, University of Oxford, Oxford, OX3 7FZ, UK.,BioMedical Research Centre, University of East Anglia, NR4 7TJ Norwich, United Kingdom.,Department of Biochemistry, National University of Singapore, Singapore.,California Institute for Biomedical Research , 11119 North Torrey Pines Road , La Jolla , California 92037 , United States.,Department of Physics, Graduate School of Science, Nagoya University, Nagoya, Japan.,Immunocore LTD, Oxford, United Kingdom.,School of Pharmacy, University of East Anglia, NR4 7TJ Norwich, United Kingdom.,Antibody and Vaccine Group, Cancer Sciences Unit, University of Southampton Faculty of Medicine, Southampton SO16 6YD, UK.,Antibody and Vaccine Group, Cancer Sciences Unit, University of Southampton Faculty of Medicine, Southampton SO16 6YD, UK. Electronic address: ann.white@ucb.com.,Faculty of Life Sciences, Kyoto Sangyo University, Kyoto, Japan tendo@cc.kyoto-su.ac.jp.,Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305.,Max Planck Institute of Biophysics, Frankfurt am Main, Germany.,Japan Science and Technology Agency/Core Research for Evolutional Science and Technology, Nagoya University, Nagoya, Japan.,College of Life Sciences, State Key Laboratory of Medicinal Chemical Biology, Nankai University, Tianjin, 300071, People's Republic of China.,Cardiovascular and Metabolic Diseases, IMED Biotech Unit , AstraZeneca , 141 57 Huddinge , Sweden.,Department of Medicinal Chemistry, Faculty of Pharmaceutical Sciences, University of Copenhagen, Universitetsparken 2, DK-2100 Copenhagen, Denmark.,Henry Wellcome Building for Molecular Physiology, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7LD, U.K.,Department of Molecular Biology and Biochemistry , Simon Fraser University , Burnaby , British Columbia V5A 1S6 , Canada.,Boehringer Ingelheim RCV GmbH & Co. KG , Doktor-Boehringer-Gasse 5-11 , 1120 Vienna , Austria.,Fakultät für Biologie, Universität Duisburg-Essen, Essen, Germany.,Division of Structural Biology, Wellcome Centre for Human Genetics, Roosevelt Drive, University of Oxford, Oxford, OX3 7BN, UK.,Department of Chemistry, Graduate School of Science, Nagoya University, Nagoya, Japan.,CRUK/MRC Oxford Institute for Radiation Oncology, Department of Oncology, University of Oxford, Old Road Campus Research Building, Oxford OX3 7DQ, United Kingdom.,Department of Chemistry , Simon Fraser University , Burnaby , British Columbia V5A 1S6 , Canada . Email: dvocadlo@sfu.ca.,Institute of Biochemistry, ETH Zürich, Zürich, Switzerland.,Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA 94305.,Department of Pathology, Faculty of Medicine and Health Sciences, Universiti Putra Malaysia, UPM Serdang, Selangor, Malaysia.,Institute for Protein Dynamics, Kyoto Sangyo University, Kyoto, Japan.,School of Life Sciences, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China; Key Laboratory of Human Microenvironment and Precision Medicine of Anhui Higher Education Institutes, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China.,School of Chemistry and Biochemistry , The University of Western Australia (M313) , 35 Stirling Highway , Crawley , WA 6009 , Australia.,Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India.,Department of Food Science, National (Taiwan) Ocean University, Keelung, 202, Taiwan.,Protein Structure Laboratory, Del Shankel Structural Biology Center, University of Kansas, Lawrence, KS, 66045.,From the Department of Biochemistry and Molecular Biology and Hollings Cancer Center, Medical University of South Carolina, Charleston, South Carolina 29425.,Technion - Israel Institute of Technology, Haifa, 3200003, Israel.,Hamburg Centre for Ultrafast Imaging & Institute for Nanostructure and Solid State Physics, University of Hamburg, 20146 Hamburg, Germany.,Nuffield Department of Clinical Medicine, Structural Genomics Consortium, University of Oxford, Old Road Campus Research Building, Roosevelt Drive, Oxford OX3 3TA, United Kingdom.,Department of Biology, Faculty of Science, Niigata University, Ikarashi 2-8050, Nishi-ku, Niigata 950-2181, Japan.,Beijing Advanced Innovation Center for Food Nutrition and Human Health, State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, 100193, China.,Department of Biointeractions and Crop Protection, Rothamsted Research, Harpenden, UK.,School of Life Sciences, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China. Electronic address: tangrp99@iccas.ac.cn.,NTU Institute of Structural Biology, Nanyang Technological University, 59 Nanyang Drive, 636921, Singapore.,Division of Cardiovascular Medicine, Radcliffe Department of Medicine, Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7LD, UK.,Department of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, Bunkyo-ku, Tokyo, Japan.,Department of Microbiology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM Serdang, Selangor, Malaysia.,Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Technology and Business University, Beijing, 100048, China.,Discovery Sciences, IMED Biotech Unit , AstraZeneca , S-43183 Mölndal , Sweden.,Japan Science and Technology Agency/Core Research for Evolutional Science and Technology, Kyoto Sangyo University, Kyoto, Japan.,Discovery Safety, Drug Safety and Metabolism, IMED Biotech Unit , AstraZeneca , Waltham , Massachusetts 02451 , United States.,Medicines Discovery Institute , Cardiff University , Main Building, Park Place , Cardiff CF10 3AT , United Kingdom.,Division of Biotechnology, Korea University, Seoul, Republic of Korea. structures@korea.ac.kr.,Laboratório de Cristalografia de Proteínas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto, Brazil.,Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstraße 108, 01307 Dresden, Germany jlauer@mpi-cbg.de wim.versees@vub.be.,School of Life Sciences, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China; Key Laboratory of Human Microenvironment and Precision Medicine of Anhui Higher Education Institutes, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China. Electronic address: zhmin07@ahu.edu.cn.,Department of Chemistry , The Scripps Research Institute , 10550 North Torrey Pines Road , La Jolla , California 92037 , United States.,VIB-VUB Center for Structural Biology, Pleinlaan 2, 1050 Brussels, Belgium.,Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, 117543, Singapore.,College of Life Sciences, Tianjin University, Tianjin, 300071, People's Republic of China.,MRC-University of Glasgow Centre for Virus Research, Garscube Campus, Glasgow, Scotland, United Kingdom.,Systems Immunity Research Institute, Cardiff University School of Medicine, Cardiff, United Kingdom.,Department of Pharmacology and Toxicology, University of Toronto, Toronto, Ontario, M5S 1A8, Canada.,Asubio Pharma Co., Ltd., 6-4-3 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan. Electronic address: muto.tsuyoshi.zu@daiichisankyo.co.jp.,Institute of Crystallography, University of Aachen (RWTH), Aachen, Germany.,Biotechnology Center, National Chung Hsing University, Taichung City, 402, Taiwan.,Department of Chemistry, Chemistry Research Laboratory, University of Oxford, Mansfield Road, Oxford OX1 3TA, United Kingdom; Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, United Kingdom.,Department of Biochemistry, Ludwig-Maximilians-Universität München, Munich, Germany.,Bristol-Myers Squibb, 700 Bay Rd, Redwood City, CA, 94063, USA.,Institute of Life Science and Natural Resources, Korea University, Seoul, Republic of Korea. structures@korea.ac.kr.,Department of Biochemistry and Molecular Genetics, University of Virginia Health System, Charlottesville, United States.,Research Center for Materials Science, Nagoya University, Nagoya, Japan.,Botnar Research Centre, Oxford Biomedical Research Unit, Oxford OX3 7LD, U.K.,Nuffield Department of Medicine Research Building, Roosevelt Drive, Nuffield Department of Medicine, University of Oxford, Oxford, OX3 7FZ, UK. andrew.mcmichael@ndm.ox.ac.uk.,Epigenetics Discovery Performance Unit, GlaxoSmithKline R&D, Stevenage Hertfordshire SG1 2NY, United Kingdom.,Cancer Immunology Discovery, Pfizer Inc., 230 E. Grand Ave, South San Francisco, CA, 94080, USA. javier.chaparro-riggers@pfizer.com.,Department of Life Science, POSTECH, Pohang, Gyeongbuk, Republic of Korea.,Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, United Kingdom.,Structural Genomics Consortium, University of Toronto, Toronto, Ontario, M5G 1L7, Canada.,Genomics Research Center, Academia Sinica, Taipei, 115, Taiwan.,Department of Biology and Biotechnology "L. Spallanzani", University of Pavia, Pavia, Italy.,Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, 66045.,Department of Chemistry, University of Michigan, Ann Arbor, MI 48109-1055, United States; Life Sciences Institute, University of Michigan, Ann Arbor, MI 48109-2216, United States; Program in Chemical Biology, University of Michigan, Ann Arbor, MI 48109-2216, United States.,Switch Laboratory, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49, PB 802, 3000 Leuven, Belgium.,York Structural Biology Laboratory , Department of Chemistry , The University of York , YO10 5DD , UK.,Nuffield Department of Medicine Research Building, Roosevelt Drive, Nuffield Department of Medicine, University of Oxford, Oxford, OX3 7FZ, UK. geraldine.gillespie@ndm.ox.ac.uk.,Department of Pharmaceutical Chemistry, University of Kansas, Lawrence, Kansas, 66047.,Department of Systems Biology , Harvard Medical School , Boston , Massachusetts 02215 , United States.,VA Tennessee Valley Healthcare System , 1310 24th Avenue S. , Nashville , Tennessee 37212 , United States.,Institute of Complex Systems (ICS), ICS-6: Structural Biochemistry, Research Centre Juelich, Juelich, Germany.,University of Puerto Rico at Humacao, Humacao, PR, USA.,Center for Integrated Protein Sciences Munich, Munich, Germany.,Departments of Microbiology, 5323 Harry Hines Blvd., Dallas, Texas, 75390.,Department of Material and Biological Chemistry, Faculty of Science, Yamagata University, Yamagata, Japan.,Department of Biochemistry and Molecular Biophysics, Kansas State University, Manhattan, Kansas, 66506.,Cancer Research UK DNA Repair Enzymes Group, Genome Damage and Stability Centre, School of Life Sciences, University of Sussex, Falmer, United Kingdom.,Cayman Chemical Company , 1180 East Ellsworth , Ann Arbor , Michigan 48108 , United States.,Department of Molecular and Integrative Physiology, Department of Internal Medicine, Division of Gastroenterology, and Rogel Cancer Center , University of Michigan , Ann Arbor , Michigan 48109 , United States.,Molecular Medicine, Scripps Research, United States.,National Synchrotron Light Source-II, Brookhaven National Laboratory, Upton, NY 11973, USA.,Target Discovery Institute, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, OX3 7FZ, UK.,T-Cell Modulation Group, Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, United Kingdom.,Research Service, Louis Stokes Cleveland VA Medical Center, Cleveland, OH 44106, USA.,IMCA-CAT, Hauptman-Woodward Medical Research Institute, Argonne, Illinois, 60439.,CSIRO Health and Biosecurity, Adelaide, SA, 5000, Australia.,School of Life Sciences, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China; Key Laboratory of Human Microenvironment and Precision Medicine of Anhui Higher Education Institutes, Anhui University, 111 Jiulong Road, Hefei, Anhui, 230601, China; Department of Biological and Food Engineering, Bozhou University, 2266 Tangwang Road, Bozhou, Anhui, China.,Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing, 100093, China.,Structural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.,Vaccine and Gene Therapy Institute and Oregon National Primate Research Center, Oregon Health & Science University, Beaverton, OR, 97006, USA.,Department of Molecular and Integrative Physiology , University of Michigan Medical School , Ann Arbor , Michigan 48109 , United States.,Structural Genomics Consortium, University of Oxford, Headington, OX3 7DQ, U.K.,Oncology Chemistry, IMED Biotech Unit , AstraZeneca , Cambridge CB4 0WG , U.K.,Department of Cell Biochemistry, University of Groningen, Groningen 9747 AG, The Netherlands.,Asubio Pharma Co., Ltd., 6-4-3 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan. Electronic address: murafuji.hidenobu.bj@daiichisankyo.co.jp.,Cancer Immunology Discovery, Pfizer Inc., 230 E. Grand Ave, South San Francisco, CA, 94080, USA. shermanmichael.chin@pfizer.com.,Department of Biochemistry, National Centre of Competence in Research Chemical Biology, University of Geneva, Geneva, Switzerland.,University of Florence, NEUROFARBA Department, Sezione di Scienze Farmaceutiche, Via Ugo Schiff 6, 50019 Sesto Fiorentino, Florence, Italy. claudiu.supuran@unifi.it.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Carbonic anhydrase 1
A, B
261Homo sapiensMutation(s): 0 
Gene Names: CA1
EC: 4.2.1.1
Find proteins for P00915 (Homo sapiens)
Go to Gene View: CA1
Go to UniProtKB:  P00915
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GXE
Query on GXE

Download SDF File 
Download CCD File 
A, B
benzeneselenol
C6 H6 Se
WDODWFPDZYSKIA-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.225 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 62.380α = 90.00
b = 71.527β = 90.00
c = 120.695γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-12-26
    Type: Initial release
  • Version 1.1: 2019-01-23
    Type: Data collection, Database references